LOCUS       CP125019                2113 bp    DNA     circular BCT 16-MAY-2023
DEFINITION  Escherichia coli strain KFS-D24 plasmid pKFS-D24_6, complete
            sequence.
ACCESSION   CP125019
VERSION     CP125019.1
DBLINK      BioProject: PRJNA956323
            BioSample: SAMN34598748
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2113)
  AUTHORS   Gomi,R., Matsumura,Y., Yamamoto,M., Matsuda,T. and Harada,H.
  TITLE     Genomic surveillance of antimicrobial-resistant Escherichia coli in
            fecal sludge and sewage in Uganda
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2113)
  AUTHORS   Gomi,R., Matsumura,Y., Yamamoto,M., Matsuda,T. and Harada,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-MAY-2023) Department of environmental engineering,
            Kyoto University, KyotoDaigakuKatsura, Nishikyo-ku, Kyoto-city
            615-8540, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. v2.9.1-b1780
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 05/09/2023 16:50:12
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,137
            CDSs (total)                      :: 5,015
            Genes (coding)                    :: 4,789
            CDSs (with protein)               :: 4,789
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 226
            CDSs (without protein)            :: 226
            Pseudo Genes (ambiguous residues) :: 0 of 226
            Pseudo Genes (frameshifted)       :: 82 of 226
            Pseudo Genes (incomplete)         :: 157 of 226
            Pseudo Genes (internal stop)      :: 38 of 226
            Pseudo Genes (multiple problems)  :: 47 of 226
            Pseudo Genes (short protein)      :: 4 of 226
            ##Genome-Annotation-Data-END##
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
FEATURES             Location/Qualifiers
     source          1..2113
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KFS-D24"
                     /isolation_source="Fecal sludge"
                     /db_xref="taxon:562"
                     /plasmid="pKFS-D24_6"
                     /geo_loc_name="Uganda"
                     /lat_lon="0.19 N 32.35 E"
                     /collection_date="2018"
                     /collected_by="Hidenori Harada, Mai Tanaka"
     gene            join(2082..2113,1..934)
                     /locus_tag="QL134_25680"
     CDS             join(2082..2113,1..934)
                     /locus_tag="QL134_25680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WHJ82112.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            938..1204
                     /locus_tag="QL134_25685"
     CDS             938..1204
                     /locus_tag="QL134_25685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHJ82113.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     Typing          363..594
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 cccccgtgat gcagtttggg atacccagcg cacgcttacc gattctgtcg ggggtatcta
       61 ccagactgct gctgaattcg agcgctatgc actccgtatg gcctcctgta gcggtttgtt
      121 acgttttggt tggtctacca tcatggaaac cggagaaacg cgcctacggc ttcgtagtgc
      181 gcaattttgc cgtgtccgtc attgccctgt ctgccagtgg agaagaaccc tcatgtggca
      241 agcccgtttt tatcaggctc taccgaaaat cgttgtggat tacccgtctt cccgatggtt
      301 gtttctgacg ttaactgtca ggaactgcga gataggtgaa cttggaacag tccttacagc
      361 aatgaatgcg gcgtttaagc gaatggaaaa gcgaaaggag ctatcacctg ttcaggggtg
      421 gatcagggct acggaggtga cgcgaggtaa ggatggcagc gcacatccgc attttcactg
      481 tctgctgatg gtgcaacctt cttggtttaa agggaagaac tacgttaagc acgaacgttg
      541 ggtagaactc tggcgcgatt gcttgcgggt gaactatgag ccgaatatcg atattcgggc
      601 agtaaaaact aagacaggtg aggttgtggc caacgttgcc gagcaactgc aaagcgcggt
      661 tgctgaaacg ctgaaatact ccgttaaacc ggaagatatg gcaaacgatc ctgagtggtt
      721 tcttgagctg acgcggcagc ttcacaagcg ccgttttatc tcgaccggtg gggcgctaaa
      781 aaacgtcctc cagttggatc gagaaaccaa tgaggatctt gtcattgccg acgatgtagg
      841 ggatggcact gatgacggga agcggacggc gtttgtctgg gattcaggta aacggcgtta
      901 caaacgcgcc cctgagaagg ataaatcgga ttaacgtatg aatattaata ttgaatacct
      961 gaatggaaat aagactattg gtttattttt tttaagaagt gaagcggtga ttcctgacag
     1021 gtttaaaaac cttattttgc ttattgatgg attaagtttt ggcacatttg gttttcatcc
     1081 gcacgaaggt tttgaggatg aattaatttt atatattcag aaaacaaacg agagggtaaa
     1141 aactcttttt gtgaaaatag atttaaacgg tatcaagttt ggatttttaa gaacgcattc
     1201 ttagttctgg aaaagagcca gcggcaggct gaggtgatag gtacgagatt gcatgcaatc
     1261 tctagtgctc tgtctatcct gcattatcct cagcattatc ctcagcatta tcctcagcat
     1321 tatcctcagc cttgccaact cgacaccaat gcaggataga caatccgatg tcaaatgtta
     1381 acactctgcg agtggtacat tttccccgga ttatcgtcct gagcctgccg ctggctctct
     1441 ttctaccgcc tcgctttgct cgttgctcaa cgcctcacag acacggatta aaatccgcat
     1501 ccgttcaccg ttttttaaag tccgttaaaa gcatgatgcc atctccgaga gttaatctcg
     1561 tcaaatgcta aatcgtgggg gtcccctttg gggttccgat ttagtgattg acgacaccac
     1621 cgattaaaaa acttatgcgg ggtggatggt ttcacgaagt gaggccatcc acctgtaaga
     1681 cagggttttg tttttattcc ctgttttggt gatcgggtgt gtggaaaagg ttggggtaag
     1741 ccgttcgggg gtgcttgttt tggggggtta aaattgtggt tattttttgc gcaattctcg
     1801 cgcgtgatcc ttgtatttat acttaaggga taaatggcgg atatgaaata gtggtttagc
     1861 ccagtaatga cgaggctttg agtgggtttt gacaggtcaa agaaaatgga gcagaattga
     1921 ggcgttttta atcggcgttg gggagtgcgt caacactccc caacatttcg aatgtgtcac
     1981 ctcagcggca aactctggtg acatgtactg gctcgcaatg cacaggtacg tgatgaatat
     2041 accacatcaa atcacagcct gcccagatcg gagcaggctt aatgtcagaa gataaattcc
     2101 tttcggacta cag
//
